Files in Rsubread

Mapping, quantification and variant analysis of sequencing data

configure

NAMESPACE

DESCRIPTION

CHANGELOG

configure.win

R/promoterRegions.R R/subjunc.R R/propmapped.R R/align.R R/qualityScores.R R/exactSNP.R R/removeDupReads.R R/sam2bed.R R/RsubreadUsersGuide.R R/detectionCall.R R/txUnique.R R/processExons.R R/featureCounts.R R/detectionCallAnnotation.R R/getInBuiltAnnotation.R R/atgcContent.R R/findCommonVariants.R R/simReads.R R/cellCounts.R R/flattenGTF.R R/sublong.R R/repair.R R/buildindex.R

src/core-interface-subjunc.c

src/exon-algorithms.h

src/sublog.h

src/build-sam-index.c

src/Makevars

src/long-hashtable.h

src/detectionCallAnnotation.c

src/seek-zlib.c

src/sam2bed.c

src/exon-align.c

src/removeDupReads.h

src/LRMsorted-hashtable.c

src/core-junction.c

src/input-files.h

src/R_wrapper.c

src/exon-algorithms.c

src/sambam-file.c

src/HelperFunctions.c

src/atgcContent.c

src/Makevars.SunOS

src/sambam-file.h

src/core-bigtable.h

src/detectionCall.c

src/tx-unique.h

src/tx-unique.c

src/LRMhashtable.h

src/LRMhelper.h

src/core-interface-aligner.c

src/detection-calls.c

src/core-indel.h

src/LRMchro-event.h

src/seek-zlib.h

src/interval_merge.h

src/LRMhashtable.c

src/input-files.c

src/mergeVCF.c

src/SNPCalling.c

src/qualityScores.c

src/input-blc.c

src/Makevars.FreeBSD

src/removeDupReads.c

src/LRMseek-zlib.c

src/gene-value-index.h

src/sorted-hashtable.h

src/sublog.c

src/LRMseek-zlib.h

src/input-blc.h

src/flattenAnnotations.c

src/interval_merge.c

src/Makevars.Linux

src/Makevars.Windows

src/LRMbase-index.c

src/gene-value-index.c

src/fullscan.c

src/hashtable.c

src/index-builder.c

src/hashtable.h

src/aligner.c

src/LRMfile-io.h

src/exon-align-indel.c

src/LRMchro-event.c

src/gene-algorithms.c

src/LRMsorted-hashtable.h

src/gen_rand_reads.c

src/core-bigtable.c

src/long-hashtable.c

src/Makevars.MacOS

src/sorted-hashtable.c

src/LRMfile-io.c

src/propmapped.c

src/processExons.c

src/core-junction.h

src/SNPCalling.h

src/core-indel.c

src/HelperFunctions.h

src/gene-algorithms.h

src/longread-mapping.c

src/fusion-align.c

src/subread.h

src/LRMhelper.c

src/readSummary.c

src/core.c

src/LRMbase-index.h

src/read-repair.c

src/RsimReads.c

src/core.h

src/LRMconfig.h

inst/NEWS.Rd

inst/CITATION

inst/doc/Rsubread.R inst/doc/SubreadUsersGuide.pdf

inst/doc/Rsubread.Rnw

inst/doc/Rsubread.pdf

inst/extdata/longreads.txt.gz

inst/extdata/reads.txt.gz

inst/extdata/reads1.txt.gz

inst/extdata/reference.fa

inst/extdata/reads2.txt.gz

inst/qualf/ref-quality-strings-20k-100bp-ERR2_70-SRR3045231.txt

inst/qualf/ref-quality-strings-20k-75bp-ERR1_59-SRR3649332.txt

inst/annot/hg38_RefSeq_exon.txt

inst/annot/mm9_RefSeq_exon.txt

inst/annot/hg19_RefSeq_exon.txt

inst/annot/mm10_RefSeq_exon.txt

build/vignette.rds

vignettes/Rsubread.Rnw

man/exactSNP.Rd man/repair.Rd man/detectionCallAnnotation.Rd man/sublong.Rd man/flattenGTF.Rd man/featureCounts.Rd man/txUnique.Rd man/align.Rd man/atgcContent.Rd man/getInBuiltAnnotation.Rd man/promoterRegions.Rd man/processExons.Rd man/RsubreadUsersGuide.Rd man/detectionCall.Rd man/simReads.Rd man/cellCounts.Rd man/buildindex.Rd man/findCommonVariants.Rd man/qualityScores.Rd man/propmapped.Rd man/removeDupReads.Rd man/sam2bed.Rd

Rsubread documentation built on March 17, 2021, 6:01 p.m.